Variant report

Variant	rs10489324
Chromosome Location	chr1:175287661-175287662
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:175122852..175126073-chr1:175286636..175289998,3	MCF-7	breast:
2	chr1:175253555..175255817-chr1:175285822..175288188,2	MCF-7	breast:
3	chr1:175287465..175289246-chr1:175306301..175308222,2	MCF-7	breast:
4	chr1:175121281..175121851-chr1:175287105..175287923,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TNR-4	chr1:175284333-175289747	NONHSAT007754

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2861278	0.83[AFR][1000 genomes]
rs73032419	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73032426	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73032442	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73032445	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949473	chr1:175151666-175391741	Enhancers ZNF genes & repeats Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv831948	chr1:175229631-175407303	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175277600-175288200	Weak transcription	Primary B cells from peripheral blood	blood
2	chr1:175283200-175320600	Weak transcription	Brain Germinal Matrix	brain
3	chr1:175283600-175288400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr1:175283800-175287800	Weak transcription	Left Ventricle	heart
5	chr1:175283800-175287800	Weak transcription	Psoas Muscle	Psoas
6	chr1:175283800-175287800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr1:175283800-175288200	Weak transcription	HMEC	breast
8	chr1:175284200-175287800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr1:175284200-175343000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr1:175285800-175288400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr1:175286200-175289000	Enhancers	Adipose Nuclei	Adipose
12	chr1:175286200-175289000	Enhancers	Placenta	Placenta
13	chr1:175286400-175287800	Bivalent Enhancer	HUVEC	blood vessel
14	chr1:175286400-175288600	Enhancers	Primary neutrophils fromperipheralblood	blood
15	chr1:175286600-175288000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr1:175286600-175289000	Enhancers	Fetal Muscle Leg	muscle
17	chr1:175286600-175289400	Enhancers	Pancreas	Pancrea
18	chr1:175286800-175288000	Weak transcription	Colon Smooth Muscle	Colon
19	chr1:175286800-175288600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr1:175286800-175288800	Enhancers	Brain Substantia Nigra	brain
21	chr1:175287000-175288200	Weak transcription	Brain Hippocampus Middle	brain
22	chr1:175287000-175288400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr1:175287200-175288400	Weak transcription	Brain Anterior Caudate	brain
24	chr1:175287200-175288400	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr1:175287200-175288600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr1:175287200-175288800	Enhancers	Right Atrium	heart
27	chr1:175287400-175288600	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr1:175287400-175292400	Weak transcription	Fetal Muscle Trunk	muscle
29	chr1:175287600-175287800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr1:175287600-175287800	Enhancers	Fetal Stomach	stomach

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